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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85351-85400 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | * | * | het | 96.5214 | 95.9358 | 97.1142 | 48.5384 | 186243 | 7890 | 184953 | 5496 | 3918 | 71.2882 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 73.3978 | 74.0332 | 72.7731 | 56.7536 | 14703 | 5157 | 14714 | 5505 | 3111 | 56.5123 | |
| gduggal-bwavard | INDEL | D6_15 | HG002compoundhet | * | 10.9462 | 9.3899 | 13.1210 | 37.7051 | 848 | 8183 | 832 | 5509 | 5456 | 99.0379 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 66.4676 | 77.4068 | 58.2374 | 31.9666 | 5170 | 1509 | 7692 | 5516 | 4283 | 77.6468 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | het | 60.4981 | 88.2511 | 46.0244 | 58.9093 | 3613 | 481 | 4706 | 5519 | 5300 | 96.0319 | |
| gduggal-bwavard | INDEL | I1_5 | HG002compoundhet | het | 20.0258 | 84.8235 | 11.3531 | 68.3156 | 721 | 129 | 709 | 5536 | 5451 | 98.4646 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 31.6043 | 34.3302 | 29.2795 | 88.3797 | 2204 | 4216 | 2292 | 5536 | 84 | 1.5173 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 31.6043 | 34.3302 | 29.2795 | 88.3797 | 2204 | 4216 | 2292 | 5536 | 84 | 1.5173 | |
| gduggal-bwavard | INDEL | I1_5 | HG002compoundhet | * | 10.9209 | 8.5626 | 15.0721 | 67.7671 | 1058 | 11298 | 983 | 5539 | 5452 | 98.4293 | |
| ckim-gatk | SNP | * | * | het | 99.6800 | 99.6561 | 99.7039 | 26.8036 | 1867144 | 6443 | 1867021 | 5544 | 194 | 3.4993 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | * | 99.2700 | 99.6259 | 98.9167 | 19.8956 | 506535 | 1902 | 507043 | 5553 | 819 | 14.7488 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.4686 | 92.4642 | 88.5573 | 75.8297 | 42258 | 3444 | 42999 | 5556 | 1706 | 30.7055 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.4686 | 92.4642 | 88.5573 | 75.8297 | 42258 | 3444 | 42999 | 5556 | 1706 | 30.7055 | |
| gduggal-snapfb | INDEL | * | * | homalt | 94.4791 | 93.5105 | 95.4679 | 58.3050 | 117049 | 8123 | 117099 | 5559 | 3925 | 70.6062 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 35.3007 | 32.2054 | 39.0543 | 51.0895 | 3569 | 7513 | 3568 | 5568 | 5531 | 99.3355 | |
| ghariani-varprowl | INDEL | D1_5 | HG002compoundhet | het | 36.0201 | 91.2037 | 22.4416 | 71.2332 | 1576 | 152 | 1614 | 5578 | 5463 | 97.9383 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 37.9377 | 35.2193 | 41.1108 | 54.0150 | 3903 | 7179 | 3901 | 5588 | 5544 | 99.2126 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 84.1642 | 83.2621 | 85.0860 | 71.1301 | 31558 | 6344 | 32017 | 5612 | 5145 | 91.6785 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 68.0380 | 93.0844 | 53.6124 | 81.3886 | 6407 | 476 | 6493 | 5618 | 90 | 1.6020 | |
| jpowers-varprowl | INDEL | D6_15 | HG002compoundhet | * | 9.9769 | 8.5262 | 12.0225 | 38.0227 | 770 | 8261 | 768 | 5620 | 5568 | 99.0747 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 84.2914 | 83.4336 | 85.1671 | 70.9828 | 31623 | 6279 | 32286 | 5623 | 5042 | 89.6674 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.3295 | 82.0722 | 84.6259 | 49.0103 | 31107 | 6795 | 30957 | 5624 | 5549 | 98.6664 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 89.4833 | 97.3914 | 82.7630 | 66.8151 | 26956 | 722 | 27013 | 5626 | 378 | 6.7188 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 82.7666 | 91.0205 | 75.8851 | 82.6190 | 17820 | 1758 | 17704 | 5626 | 180 | 3.1994 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 82.7666 | 91.0205 | 75.8851 | 82.6190 | 17820 | 1758 | 17704 | 5626 | 180 | 3.1994 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | het | 60.6574 | 83.0588 | 47.7728 | 63.6646 | 706 | 144 | 5148 | 5628 | 4753 | 84.4527 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 79.4845 | 74.4341 | 85.2701 | 46.6287 | 28212 | 9690 | 32580 | 5628 | 3335 | 59.2573 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.6682 | 96.2747 | 75.5590 | 61.4479 | 17186 | 665 | 17402 | 5629 | 124 | 2.2029 | |
| ckim-gatk | SNP | * | * | * | 99.6466 | 99.4788 | 99.8150 | 23.5123 | 3038698 | 15921 | 3038552 | 5632 | 250 | 4.4389 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 59.7519 | 97.7584 | 43.0248 | 79.6303 | 4143 | 95 | 4253 | 5632 | 101 | 1.7933 | |
| jpowers-varprowl | INDEL | * | HG002complexvar | * | 91.1605 | 89.9127 | 92.4435 | 54.5762 | 69177 | 7761 | 68949 | 5636 | 5349 | 94.9077 | |
| mlin-fermikit | SNP | tv | * | * | 98.7665 | 98.1308 | 99.4104 | 19.3147 | 951572 | 18126 | 951506 | 5643 | 4116 | 72.9399 | |
| anovak-vg | INDEL | D6_15 | * | * | 67.2100 | 61.4480 | 74.1646 | 48.0426 | 16033 | 10059 | 16202 | 5644 | 4329 | 76.7009 | |
| gduggal-snapvard | SNP | * | map_siren | het | 95.1967 | 96.5469 | 93.8838 | 69.6200 | 87849 | 3142 | 86743 | 5651 | 524 | 9.2727 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 89.7592 | 95.7940 | 84.4397 | 65.4433 | 29198 | 1282 | 30682 | 5654 | 5190 | 91.7934 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 89.7592 | 95.7940 | 84.4397 | 65.4433 | 29198 | 1282 | 30682 | 5654 | 5190 | 91.7934 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | * | 44.4193 | 40.7689 | 48.7878 | 63.5182 | 5037 | 7318 | 5393 | 5661 | 4783 | 84.4904 | |
| mlin-fermikit | SNP | * | map_siren | homalt | 84.4526 | 80.6077 | 88.6825 | 45.6664 | 44460 | 10696 | 44453 | 5673 | 5485 | 96.6861 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 34.2641 | 93.9894 | 20.9509 | 81.3237 | 1423 | 91 | 1507 | 5686 | 93 | 1.6356 | |
| ghariani-varprowl | INDEL | D6_15 | HG002compoundhet | * | 10.6907 | 9.2349 | 12.6916 | 39.6150 | 834 | 8197 | 828 | 5696 | 5632 | 98.8764 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.9733 | 91.1887 | 83.1303 | 79.6742 | 28398 | 2744 | 28182 | 5719 | 224 | 3.9168 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.9733 | 91.1887 | 83.1303 | 79.6742 | 28398 | 2744 | 28182 | 5719 | 224 | 3.9168 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.6403 | 99.1633 | 75.3631 | 71.5296 | 17421 | 147 | 17540 | 5734 | 127 | 2.2149 | |
| gduggal-snapvard | SNP | * | map_siren | * | 96.2272 | 96.4179 | 96.0373 | 65.1379 | 140990 | 5238 | 139038 | 5737 | 591 | 10.3016 | |
| ciseli-custom | SNP | * | map_l125_m1_e0 | * | 80.8628 | 76.5085 | 85.7426 | 76.0516 | 34679 | 10648 | 34610 | 5755 | 1482 | 25.7515 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.6704 | 84.8021 | 86.5567 | 80.2451 | 36749 | 6586 | 37209 | 5779 | 5249 | 90.8289 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.9891 | 97.2501 | 85.4856 | 71.8215 | 34445 | 974 | 34119 | 5793 | 280 | 4.8334 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 89.6438 | 88.9452 | 90.3535 | 42.9428 | 33712 | 4190 | 54335 | 5801 | 4069 | 70.1431 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.7255 | 84.9037 | 86.5634 | 80.2326 | 36793 | 6542 | 37456 | 5814 | 5159 | 88.7341 | |
| gduggal-bwavard | INDEL | D1_5 | HG002compoundhet | het | 34.5608 | 92.4769 | 21.2515 | 68.3690 | 1598 | 130 | 1569 | 5814 | 5564 | 95.7000 | |